Supporting data for "A High-Quality Genome Assembly from a Single, Field-collected Spotted Lanternfly (Lycorma delicatula) using the PacBio Sequel II System"

Dataset type: Genomic
Data released on October 09, 2019

Kingan SB; Urban J; Lambert CC; Baybayan P; Childers A; Coates BS; Scheffler B; Hackett K; Korlach J; Geib SM (2019): Supporting data for "A High-Quality Genome Assembly from a Single, Field-collected Spotted Lanternfly (Lycorma delicatula) using the PacBio Sequel II System" GigaScience Database. http://dx.doi.org/10.5524/100650

DOI10.5524/100650

A high-quality reference genome is an essential tool for applied and basic research on arthropods. Long-read sequencing technologies may be used to generate more complete and contiguous genome assemblies than alternate technologies, however, long-read methods have historically had greater input DNA requirements and higher costs than next generation sequencing, which are barriers to their use on many samples. Here, we present a 2.3 Gb de novo genome assembly of a field-collected adult female Spotted Lanternfly (Lycorma delicatula) using a single PacBio SMRT Cell. The Spotted Lanternfly is an invasive species recently discovered in the northeastern United States, threatening to damage economically important crop plants in the region. The DNA from one individual was used to make one standard, size-selected library with an average DNA fragment size of ~20 kb. The library was run on one Sequel II SMRT Cell 8M, generating a total of 132 Gb of long-read sequences, of which 82 Gb were from unique library molecules, representing approximately 36x coverage of the genome. The assembly had high contiguity (contig N50 length = 1.5 Mb), completeness, and sequence level accuracy as estimated by conserved gene set analysis (96.8% of conserved genes both complete and without frame shift errors). Further, it was possible to segregate more than half of the diploid genome into the two separate haplotypes. The assembly also recovered two microbial symbiont genomes known to be associated with L. delicatula, each microbial genome being assembled into a single contig. We demonstrate that field-collected arthropods can be used for the rapid generation of high-quality genome assemblies, an attractive approach for projects on emerging invasive species, disease vectors, or conservation efforts of endangered species.

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Additional details

Read the peer-reviewed publication(s):

(PubMed: 31609423)

Additional information:

https://doi.org/10.15482/USDA.ADC/1503745

Accessions (data generated as part of this study):

BioProject: PRJNA540533





Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
SAMN11546444130591  Lycorma delicatula Description:Genomic DNA extracted from adult femal...
Alternative accession-BioProject:PRJNA540533
Alternative accession-BioSample:SAMN11546444
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Displaying 1-1 of 1 Sample(s).




File NameSample IDData TypeFile FormatSizeRelease Date 
OtherTSV88.69 KB2019-09-11
Genome sequenceFASTA1.18 GB2019-09-11
Genome sequenceFASTA2.27 GB2019-09-11
ReadmeTEXT3.72 KB2019-09-11
Genome sequenceFASTA2.31 GB2019-09-11
Genome sequenceFASTA1.28 GB2019-09-11
Genome sequenceFASTA2.13 GB2019-09-11
OtherUNKNOWN781.7 KB2019-09-11
Genome sequenceFASTA191.98 KB2019-09-11
Genome sequenceFASTA63.01 KB2019-09-11
Displaying 1-10 of 10 File(s).
Funding body Awardee Award ID Comments
USDA Julie Urban 1004464 USDA NIFA Hatch Funding
USDA Julie Urban AP18PPQS and T00C221 USDA APHIS-PPQ Cooperative Agreement
Date Action
October 9, 2019 Dataset publish
October 14, 2022 Manuscript Link updated : 10.1093/gigascience/giz122